Siemens IMA files (ON and OFF)

[brainmeister]

Hello, and thank you for your efforts on Tarquin. 

I've acquired some mega-press data on a Tim Trio and have saved the results as IMA files. The first 64 images are the unedited spectra and the last are the edited. Tarquin seems to recognize the acquisition parameters fine, but does not seem to do load more than 1 file: I get the same weird result if I just put the 1 file alone in a directory, without it's ON spectrum. Is this expected? I have tried to also re-order my files so that odd and even file names correspond to the on & off spectra, but Tarquin seems to totally ignore all files but the one loaded. Any help or guidance would be much appreciated. 

Thanks, 

Reza

[Martin Wilson]

Hi Reza,

TARQUIN works by assuming that all the required MRS data is contained
within one file. Unfortunately Siemens dynamic scans are split into
separate IMA files (unlike Philips and GE).

There are a few options:
1) Change TARQUIN to allow the user to specify a directory of IMA
files to be combined. I'm afraid this isn't likely to happen anytime
soon as it's going to take a fair bit of work and debugging.
2) You could try and export the data as RDA or DICOM format and see if
it is combined automatically. It may also be possible to manually
combine using Siemens analysis tools (or jMRUI?).
3) Write a script (Python, MATLAB) to combine the data files and then
import this into TARQUIN. This is the approach I would take, if you
want to try, and need help then e-mail me directly.

Hope that helps,

Martin

[brainmeister]

Hi Martin,

Thank you for your reply. Option 3 seems to be the only viable one, as I'm told the RDA file may not hold mega-press data correctly, and also by now the data are no longer on the scanner (I guess I could always do an import though). 

In any case, I started pushing option 3 with matlab's dicominfo and dicomwrite functions, and even copying a single file into matlab and writing it renderes it unusable by tarquin. I think matlab is removing fields that it cannot read or interpret. So, I'm a bit stuck unless there are other ways of getting ima data into matlab and re-organizing it so tarquin can read it. I guess I need your help! 

Thanks,

Reza

[brainmeister]

Hi Martin, 

I'm following up to see if by any chance you had a chance to add a feature to load a directory of IMA files into Tarquin. 

Many thanks,

Reza

On Thursday, January 17, 2013 2:24:07 AM UTC-5, Martin Wilson wrote:

[Martin Wilson]

Hi Reza,

Afraid not, my main focus of development has been MRSI and will most
likely continue along this route.

Martin

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